If you use ecoevolity, please cite it as:

Oaks, J.R. 2019. Full Bayesian Comparative Phylogeography from Genomic Data. Systematic Biology 68:371-395. DOI:

If you use the simcoevolity tool to simulate data based on an empirical dataset, please also cite:

Oaks, J.R., C.D. Siler, And R.M. Brown. 2019. The comparative biogeography of Philippine geckos challenges predictions from a paradigm of climate‐driven vicariant diversification across an island archipelago. Evolution 73:1151-1167. DOI:

We also strongly encourage you to cite the original description of the likelihood used by ecoevolity:

Bryant, D., Bouckaert, R., Felsenstein, J., Rosenberg, N. A., and Roychoudhury, A. 2012. Inferring species trees directly from biallelic genetic markers: Bypassing gene trees in a full coalescent analysis. Molecular Biology and Evolution, 29(8): 1917–1932.